Marker removal in staphylococci via Cre recombinase and different lox sites

Applied and Environmental Microbiology

Volumn 74, Issue 5, 2008, Pages 1316-1323

  Leibig, Martina ^a   Krismer, Bernhard ^a,b   Kolb, Martina ^a   Friede, Alexandra ^a   Götz, Friedrich ^a   Bertram, Ralph ^a  

^a UNIVERSITY OF TÜBINGEN   (Germany)

^b Dr Petry Genmedics GmbH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIA; CHROMOSOMES; GENE EXPRESSION; GENETIC ENGINEERING; MUTAGENESIS;

ANTIBIOTIC RESISTANCE MARKERS; GENOMIC EVICTION; RECOMBINASE RECOGNITION SITES; SELECTION MARKERS;

BIOMARKERS;

CRE RECOMBINASE; ERYTHROMYCIN; KANAMYCIN;

ANTIBIOTIC RESISTANCE; BACTERIUM; ENZYME ACTIVITY; GENE EXPRESSION; GENETIC ENGINEERING; GENETIC MARKER; MUTATION; PLASMID; POLYMERASE CHAIN REACTION; RECOMBINATION;

ARTICLE; GENE CONSTRUCT; GENE DELETION; GENE EXPRESSION; GENETIC ANALYSIS; GENETIC RESISTANCE; GENOMICS; HEAT SENSITIVITY; NONHUMAN; OPERON; PLASMID; STAPHYLOCOCCUS; STAPHYLOCOCCUS AUREUS; STAPHYLOCOCCUS CARNOSUS; TEMPERATURE MEASUREMENT;

BASE SEQUENCE; DRUG RESISTANCE, MICROBIAL; GENE DELETION; GENETIC ENGINEERING; GENETIC MARKERS; GENETIC VECTORS; INTEGRASES; MOLECULAR SEQUENCE DATA; POLYMERASE CHAIN REACTION; STAPHYLOCOCCUS;

STAPHYLOCOCCUS; STAPHYLOCOCCUS AUREUS; STAPHYLOCOCCUS CARNOSUS;

EID: 40549143686     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.02424-07     Document Type: Article

References (48)

1. Albert, H., E. C. Dale, E. Lee, and D. W. Ow. 1995. Site-specific integration of DNA into wild-type and mutant lox sites placed in the plant genome. Plant J. 7:649-659.
2. Altschul, S. F., T. L. Madden, A. A. Schaffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
3. Araki, K., M. Araki, and K. Yamamura. 2002. Site-directed integration of the cre gene mediated by Cre recombinase using a combination of mutant lox sites. Nucleic Acids Res. 30:e103.
4. Augustin, J., and F. Götz. 1990. Transformation of Staphylococcus epidermidis and other staphylococcal species with plasmid DNA by electroporation. FEMS Microbiol. Lett. 54:203-207.
5. Ayres, E. K., V. J. Thomson, G. Merino, D. Balderes, and D. H. Figurski. 1993. Precise deletions in large bacterial genomes by vector-mediated excision (VEX): the trfA gene of promiscuous plasmid RK2 is essential for replication in several gram-negative hosts. J. Mol. Biol. 230:174-185.
6. Bae, T., A. K. Banger, A. Wallace, E. M. Glass, F. Aslund, O. Schneewind, and D. M. Missiakas. 2004. Staphylococcus aureus virulence genes identified by bursa aurealis mutagenesis and nematode killing. Proc. Natl. Acad. Sci. USA 101:12312-12317.
7. Bae, T., and O. Schneewind. 2006. Allelic replacement in Staphylococcus aureus with inducible counter-selection. Plasmid 55:58-63.
8. Barekzi, N., K. Beinlich, T. T. Hoang, X. Q. Pham, R. Karkhoff-Schweizer, and H. P. Schweizer. 2000. High-frequency flp recombinase-mediated inversions of the oriC-containing region of the Pseudomonas aeruginosa genome. J. Bacteriol. 182:7070-7074.
9. Bera, A., S. Herbert, A. Jakob, W. Vollmer, and F. Götz. 2005. Why are pathogenic staphylococci so lysozyme resistant? The peptidoglycan O-acetyltransferase OatA is the major determinant for lysozyme resistance of Staphylococcus aureus. Mol. Microbiol. 55:778-787.
10. Brückner, R. 1997. Gene replacement in Staphylococcus carnosus and Staphylococcus xylosus. FEMS Microbiol. Lett. 151:1-8.
11. Campo, N., M. L. Daveran-Mingot, K. Leenhouts, P. Ritzenthaler, and P. Le Bourgeois. 2002. Cre-loxP recombination system for large genome rearrangements in Lactococcus lactis. Appl. Environ. Microbiol. 68:2359-2367.
12. Dai, Z., J. C. Sirard, M. Mock, and T. M. Koehler. 1995. The atxA gene product activates transcription of the anthrax toxin genes and is essential for virulence. Mol. Microbiol. 16:1171-1181.
13. Diep, B. A., S. R. Gill, R. F. Chang, T. H. Phan, J. H. Chen, M. G. Davidson, F. Lin, J. Lin, H. A. Carleton, E. F. Mongodin, G. F. Sensabaugh, and F. Perdreau-Remington. 2006. Complete genome sequence of USA300, an epidemic clone of community-acquired methicillin-resistant Staphylococcus aureus. Lancet 367:731-739.
14. Foster, T. J. 2005. Immune evasion by staphylococci. Nat. Rev. Microbiol. 3:948-958.
15. Götz, F. 1990. Staphylococcus carnosus: a new host organism for gene cloning and protein production. Soc. Appl. Bacteriol. Symp. Ser. 19:49S-53S.
16. Götz, F., T. Bannerman, and K.-H. Schleifer. 2006. The genera Staphylococcus and Macrococcus, p. 5-75. In M. Dworkin (ed.), Prokaryotes, vol. 4. Springer, New York, NY.
17. Götz, F., and B. Schumacher. 1987. Improvements of protoplast transformation in Staphylococcus carnosus. FEMS Microbiol. Lett. 40:285-288.
18. Grindley, N. D., K. L. Whiteson, and P. A. Rice. 2006. Mechanisms of site-specific recombination. Annu. Rev. Biochem. 75:567-605.
19. Guérout-Fleury, A. M., K. Shazand, N. Frandsen, and P. Stragier. 1995. Antibiotic-resistance cassettes for Bacillus subtilis. Gene 167:335-336.
20. Hanahan, D. 1983. Studies on transformation of Escherichia coli with Plasmids. J. Mol. Biol. 166:557-580.
21. Helmann, J. D. 1995. Compilation and analysis of Bacillus subtilis sigma A-dependent promoter sequences: evidence for extended contact between RNA polymerase and upstream promoter DNA. Nucleic Acids Res. 23: 2351-2360.
22. Iordanescu, S., and M. Surdeanu. 1976. Two restriction and modification systems in Staphylococcus aureus NCTC8325. J. Gen. Microbiol. 96:277-281.
23. Jones, J. M., S. C. Yost, and P. A. Pattee. 1987. Transfer of the conjugal tetracycline resistance transposon Tn916 from Streptococcus faecalis to Staphylococcus aureus and identification of some insertion sites in the staphylococcal chromosome. J. Bacteriol. 169:2121-2131.
24. Khodakaramian, G., S. Lissenden, B. Gust, L. Moir, P. A. Hoskisson, K. F. Chater, and M. C. Smith. 2006. Expression of Cre recombinase during transient phage infection permits efficient marker removal in Streptomyces. Nucleic Acids Res. 34:e20.
25. 2 and a trans-acting element activate transcription from one of two promoters. J. Bacteriol. 176:586-595.
26. Lamhert, J. M., R. S. Bongers, and M. Kleerehezem. 2007. Cre-lox-based system for multiple gene deletions and selectable-marker removal in Lactobacillus plantarum. Appl. Environ. Microbiol. 73:1126-1135.
27. Lee, C. Y., S. L. Buranen, and Z. H. Ye. 1991. Construction of single-copy integration vectors for Staphylococcus aureus. Gene 103:101-105.
28. Levy, S. B., and B. Marshall. 2004. Antibacterial resistance worldwide: causes, challenges and responses. Nat. Med. 10:S122-129.
29. Liberati, N. T., J. M. Urbach, S. Miyata, D. G. Lee, E. Drenkard, G. Wu, J. Villanueva, T. Wei, and F. M. Ausubel. 2006. An ordered, nonredundant library of Pseudomonas aeruginosa strain PA14 transposon insertion mutants. Proc. Natl. Acad. Sci. USA 103:2833-2838.
30. Lowe, A. M., D. T. Beattie, and R. L. Deresiewicz. 1998. Identification of novel staphylococcal virulence genes by in vivo expression technology. Mol. Microbiol. 27:967-976.
31. Luong, T. T., and C. Y. Lee. 2007. Improved single-copy integration vectors for Staphylococcus aureus. J. Microbiol. Methods 70:186-190.
32. Makhlin, J., T. Kofman, I. Borovok, C. Kohler, S. Engelmann, G. Cohen, and Y. Aharonowitz. 2007. Staphylococcus aureus ArcR controls expression of the arginine deiminase Operon. J. Bacteriol. 189:5976-5986.
33. Marraffini, L. A., A. C. Dedent, and O. Schneewind. 2006. Sortases and the art of anchoring proteins to the envelopes of gram-positive bacteria. Microbiol. Mol. Biol. Rev. 70:192-221.
34. Nordmann, P., T. Naas, N. Fortineau, and L. Poirel. 2007. Superbugs in the coming new decade; multidrug resistance and prospects for treatment of Staphylococcus aureus, Enterococcus spp. and Pseudomonas aeruginosa in 2010. Curr. Opin. Microbiol. 10:436-440.
35. Pajunen, M. I., A. T. Pulliainen, J. Finne, and H. Savilahti. 2005. Generation of transposon insertion mutant libraries for gram-positive bacteria by electroporation of phage Mu DNA transposition complexes. Microbiology 151: 1209-1218.
36. Pomerantsev, A. P., R. Sitaraman, C. R. Galloway, V. Kivovich, and S. H. Leppla. 2006. Genome engineering in Bacillus anthracis using Cre recombinase. Infect. Immun. 74:682-693.
37. Samuelson, P., M. Hansson, N. Ahlborg, C. Andreoni, F. Götz, T. Bachi, T. N. Nguyen, H. Binz, M. Uhlen, and S. Stahl. 1995. Cell surface display of recombinant proteins on Staphylococcus carnosus. J. Bacteriol. 177:1470-1476.
38. Schleifer, K.-H., and U. Fischer. 1982. Description of a new species of the genus Staphylococcus: Staphylococcus carnosus. Int. J. Syst. Bacteriol. 32: 153-156.
39. Schweizer, H. P. 2003. Applications of the Saccharomyces cerevisiae Flp-FRT system in bacterial genetics. J. Mol. Microbiol. Biotechnol. 5:67-77.
40. Song, H., F. Wolschendorf, and M. Niederweis. Construction of unmarked deletion mutants in mycobacteria. In Mycobacterium protocols, 2nd ed., in press. Humana Press, Totowa, NJ.
41. Sternberg, N., and D. Hamilton. 1981. Bacteriophage P1 site-specific recombination. I. Recombination between loxP sites. J. Mol. Biol. 150:467-486.
42. Sternberg, N., D. Hamilton, and R. Hoess. 1981. Bacteriophage P1 site-specific recombination. II. Recombination between loxP and the bacterial chromosome. J. Mol. Biol. 150:487-507.
43. Strauss, A., and F. Götz. 1996. In vivo immobilization of enzymatically active polypeptides on the cell surface of Staphylococcus carnosus. Mol. Microbiol. 21:491-500.
44. Suzuki, N., S. Okayama, H. Nonaka, Y. Tsuge, M. Inui, and H. Yukawa. 2005. Large-scale engineering of the Corynebacterium glutamicum genome. Appl. Environ. Microbiol. 71:3369-3372.
45. Suzuki, N., Y. Tsuge, M. Inui, and H. Yukawa. 2005. Cre/loxP-mediated deletion system for large genome rearrangements in Corynebacterium glutamicum. Appl. Microbiol. Biotechnol. 67:225-233.
46. Takahashi, T., I. Satoh, and N. Kikuchi. 1999. Phylogenetic relationships of 38 taxa of the genus Staphylococcus based on 16S rRNA gene sequence analysis. Int. J. Syst. Bacteriol. 49(Pt. 2):725-728.
47. Thomson, J. G., E. B. Rucker III, and J. A. Piedrahita. 2003. Mutational analysis of loxP sites for efficient Cre-mediated insertion into genomic DNA. Genesis 36:162-167.
48. Yao, J., J. Zhong, Y. Fang, E. Geisinger, R. P. Novick, and A. M. Lambowitz. 2006. Use of targetrons to disrupt essential and nonessential genes in Staphylococcus aureus reveals temperature sensitivity of L1.LtrB group II intron splicing. RNA 12:1271-1281.